This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g TGTGGC -e 0 -O 6 - Trimming 1 adapter with at most 0.0% errors in single-end mode ... This is cutadapt 1.11 with Python 2.7.12 Command line parameters: --discard-untrimmed --minimum-length 100 -g ggactacnngggtatctaat -e 0.2 -O 20 - Trimming 1 adapter with at most 20.0% errors in single-end mode ... Finished in 67.55 s (22 us/read; 2.75 M reads/minute). === Summary === Total reads processed: 3,094,653 Reads with adapters: 22,721 (0.7%) Reads that were too short: 11,277 (0.4%) Reads written (passing filters): 11,444 (0.4%) Total basepairs processed: 931,490,553 bp Total written (filtered): 2,994,099 bp (0.3%) === Adapter 1 === Sequence: TGTGGC; Type: regular 5'; Length: 6; Trimmed: 22721 times. No. of allowed errors: 0-6 bp: 0 Overview of removed sequences length count expect max.err error counts 6 88 755.5 0 88 7 435 755.5 0 435 8 133 755.5 0 133 9 6940 755.5 0 6940 10 32 755.5 0 32 11 9 755.5 0 9 12 21 755.5 0 21 13 13 755.5 0 13 14 6 755.5 0 6 15 11 755.5 0 11 16 6 755.5 0 6 17 8 755.5 0 8 18 11 755.5 0 11 19 206 755.5 0 206 20 8 755.5 0 8 21 292 755.5 0 292 22 5 755.5 0 5 23 15 755.5 0 15 24 5 755.5 0 5 25 3 755.5 0 3 26 9 755.5 0 9 27 4 755.5 0 4 28 5 755.5 0 5 29 12 755.5 0 12 30 37 755.5 0 37 31 9 755.5 0 9 32 40 755.5 0 40 33 16 755.5 0 16 34 7 755.5 0 7 35 12 755.5 0 12 36 9 755.5 0 9 37 10 755.5 0 10 38 8 755.5 0 8 39 14 755.5 0 14 40 11 755.5 0 11 41 7 755.5 0 7 42 6 755.5 0 6 43 12 755.5 0 12 44 14 755.5 0 14 45 11 755.5 0 11 46 11 755.5 0 11 47 31 755.5 0 31 48 13 755.5 0 13 49 20 755.5 0 20 50 10 755.5 0 10 51 16 755.5 0 16 52 9 755.5 0 9 53 15 755.5 0 15 54 6 755.5 0 6 55 19 755.5 0 19 56 3 755.5 0 3 57 82 755.5 0 82 58 15 755.5 0 15 59 12 755.5 0 12 60 15 755.5 0 15 61 7 755.5 0 7 62 25 755.5 0 25 63 6 755.5 0 6 64 8 755.5 0 8 65 5 755.5 0 5 66 5 755.5 0 5 67 9 755.5 0 9 68 6 755.5 0 6 69 9 755.5 0 9 70 8 755.5 0 8 71 65 755.5 0 65 72 37 755.5 0 37 73 27 755.5 0 27 74 9 755.5 0 9 75 23 755.5 0 23 76 2 755.5 0 2 77 9 755.5 0 9 78 6 755.5 0 6 79 13 755.5 0 13 80 17 755.5 0 17 81 10 755.5 0 10 82 12 755.5 0 12 83 11 755.5 0 11 84 16 755.5 0 16 85 11 755.5 0 11 86 8 755.5 0 8 87 8 755.5 0 8 88 3 755.5 0 3 89 2 755.5 0 2 90 3 755.5 0 3 91 3 755.5 0 3 92 20 755.5 0 20 93 9 755.5 0 9 94 9 755.5 0 9 95 5 755.5 0 5 96 6 755.5 0 6 97 3 755.5 0 3 98 4 755.5 0 4 99 6 755.5 0 6 100 11 755.5 0 11 101 10 755.5 0 10 102 5 755.5 0 5 103 1 755.5 0 1 104 3 755.5 0 3 105 11 755.5 0 11 106 8 755.5 0 8 107 11 755.5 0 11 108 6 755.5 0 6 109 9 755.5 0 9 110 7 755.5 0 7 111 5 755.5 0 5 112 15 755.5 0 15 113 2 755.5 0 2 114 3 755.5 0 3 115 8 755.5 0 8 116 10 755.5 0 10 117 21 755.5 0 21 118 6 755.5 0 6 119 15 755.5 0 15 120 10 755.5 0 10 121 10 755.5 0 10 122 13 755.5 0 13 123 17 755.5 0 17 124 13 755.5 0 13 125 26 755.5 0 26 126 10 755.5 0 10 127 12 755.5 0 12 128 19 755.5 0 19 129 10 755.5 0 10 130 31 755.5 0 31 131 393 755.5 0 393 132 204 755.5 0 204 133 104 755.5 0 104 134 30 755.5 0 30 135 11 755.5 0 11 136 19 755.5 0 19 137 25 755.5 0 25 138 215 755.5 0 215 139 351 755.5 0 351 140 8 755.5 0 8 141 12 755.5 0 12 142 10 755.5 0 10 143 9 755.5 0 9 144 9 755.5 0 9 145 9 755.5 0 9 146 4 755.5 0 4 147 7 755.5 0 7 148 6 755.5 0 6 149 7 755.5 0 7 150 12 755.5 0 12 151 12 755.5 0 12 152 15 755.5 0 15 153 10 755.5 0 10 154 4 755.5 0 4 155 5 755.5 0 5 156 2 755.5 0 2 157 6 755.5 0 6 158 7 755.5 0 7 159 7 755.5 0 7 160 4 755.5 0 4 161 8 755.5 0 8 162 7 755.5 0 7 163 7 755.5 0 7 164 12 755.5 0 12 165 9 755.5 0 9 166 12 755.5 0 12 167 12 755.5 0 12 168 16 755.5 0 16 169 5 755.5 0 5 170 9 755.5 0 9 171 7 755.5 0 7 172 7 755.5 0 7 173 9 755.5 0 9 174 4 755.5 0 4 175 6 755.5 0 6 176 4 755.5 0 4 177 9 755.5 0 9 178 11 755.5 0 11 179 12 755.5 0 12 180 6 755.5 0 6 181 9 755.5 0 9 182 6 755.5 0 6 183 7 755.5 0 7 184 13 755.5 0 13 185 10 755.5 0 10 186 9 755.5 0 9 187 11 755.5 0 11 188 8 755.5 0 8 189 21 755.5 0 21 190 10 755.5 0 10 191 7 755.5 0 7 192 13 755.5 0 13 193 11 755.5 0 11 194 9 755.5 0 9 195 6 755.5 0 6 196 8 755.5 0 8 197 7 755.5 0 7 198 12 755.5 0 12 199 7 755.5 0 7 200 5 755.5 0 5 201 6 755.5 0 6 202 12 755.5 0 12 203 24 755.5 0 24 204 61 755.5 0 61 205 96 755.5 0 96 206 12 755.5 0 12 207 4 755.5 0 4 208 18 755.5 0 18 209 14 755.5 0 14 210 18 755.5 0 18 211 18 755.5 0 18 212 98 755.5 0 98 213 153 755.5 0 153 214 662 755.5 0 662 215 24 755.5 0 24 216 11 755.5 0 11 217 20 755.5 0 20 218 61 755.5 0 61 219 14 755.5 0 14 220 8 755.5 0 8 221 5 755.5 0 5 222 4 755.5 0 4 223 13 755.5 0 13 224 6 755.5 0 6 225 10 755.5 0 10 226 9 755.5 0 9 227 6 755.5 0 6 228 12 755.5 0 12 229 8 755.5 0 8 230 5 755.5 0 5 231 8 755.5 0 8 232 8 755.5 0 8 233 10 755.5 0 10 234 8 755.5 0 8 235 18 755.5 0 18 236 35 755.5 0 35 237 112 755.5 0 112 238 107 755.5 0 107 239 17 755.5 0 17 240 6 755.5 0 6 241 5 755.5 0 5 242 14 755.5 0 14 243 59 755.5 0 59 244 49 755.5 0 49 245 112 755.5 0 112 246 92 755.5 0 92 247 30 755.5 0 30 248 9 755.5 0 9 249 11 755.5 0 11 250 21 755.5 0 21 251 29 755.5 0 29 252 39 755.5 0 39 253 35 755.5 0 35 254 29 755.5 0 29 255 38 755.5 0 38 256 28 755.5 0 28 257 57 755.5 0 57 258 42 755.5 0 42 259 72 755.5 0 72 260 291 755.5 0 291 261 851 755.5 0 851 262 1561 755.5 0 1561 263 111 755.5 0 111 264 14 755.5 0 14 265 34 755.5 0 34 266 23 755.5 0 23 267 36 755.5 0 36 268 48 755.5 0 48 269 36 755.5 0 36 270 7 755.5 0 7 271 18 755.5 0 18 272 35 755.5 0 35 273 74 755.5 0 74 274 23 755.5 0 23 275 20 755.5 0 20 276 40 755.5 0 40 277 67 755.5 0 67 278 38 755.5 0 38 279 35 755.5 0 35 280 75 755.5 0 75 281 57 755.5 0 57 282 71 755.5 0 71 283 46 755.5 0 46 284 57 755.5 0 57 285 90 755.5 0 90 286 1184 755.5 0 1184 287 1689 755.5 0 1689 288 1852 755.5 0 1852 289 13 755.5 0 13 290 51 755.5 0 51 291 11 755.5 0 11 292 11 755.5 0 11 293 5 755.5 0 5 294 15 755.5 0 15 295 14 755.5 0 14 296 36 755.5 0 36 297 29 755.5 0 29 298 18 755.5 0 18 299 28 755.5 0 28 300 55 755.5 0 55 301 2 755.5 0 2 Finished in 0.51 s (45 us/read; 1.35 M reads/minute). === Summary === Total reads processed: 11,444 Reads with adapters: 378 (3.3%) Reads that were too short: 4 (0.0%) Reads written (passing filters): 374 (3.3%) Total basepairs processed: 2,994,099 bp Total written (filtered): 101,693 bp (3.4%) === Adapter 1 === Sequence: GGACTACNNGGGTATCTAAT; Type: regular 5'; Length: 20; Trimmed: 378 times. No. of allowed errors: 0-4 bp: 0; 5-9 bp: 1; 10-14 bp: 2; 15-19 bp: 3; 20 bp: 4 Overview of removed sequences length count expect max.err error counts 19 6 0.0 3 0 5 0 0 1 20 354 0.0 4 344 10 21 2 0.0 4 0 1 0 1 22 3 0.0 4 2 0 0 0 1 23 1 0.0 4 0 0 0 1 27 1 0.0 4 0 0 0 0 1 72 1 0.0 4 0 0 0 0 1 98 1 0.0 4 0 0 0 0 1 115 1 0.0 4 0 0 0 0 1 127 3 0.0 4 0 0 0 0 3 141 1 0.0 4 0 0 0 0 1 153 1 0.0 4 0 0 0 0 1 170 1 0.0 4 0 0 0 0 1 234 1 0.0 4 0 0 0 0 1 265 1 0.0 4 0 0 0 0 1 This is cutadapt 1.11 with Python 2.7.12 Command line parameters: -a CTGSTGCVYCCCRTAGG - Trimming 1 adapter with at most 10.0% errors in single-end mode ... Finished in 0.01 s (27 us/read; 2.24 M reads/minute). === Summary === Total reads processed: 374 Reads with adapters: 7 (1.9%) Reads written (passing filters): 374 (100.0%) Total basepairs processed: 101,693 bp Total written (filtered): 100,344 bp (98.7%) === Adapter 1 === Sequence: CTGSTGCVYCCCRTAGG; Type: regular 3'; Length: 17; Trimmed: 7 times. No. of allowed errors: 0-9 bp: 0; 10-17 bp: 1 Bases preceding removed adapters: A: 14.3% C: 28.6% G: 14.3% T: 42.9% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 4 1 1.5 0 1 12 1 0.0 1 0 1 259 1 0.0 1 1 265 1 0.0 1 1 269 2 0.0 1 2 271 1 0.0 1 0 1